| The identification of alternative splice variants in TLS-CHOP transfected human fibrosarcoma cell lines would provide important evidences in tumor development. It also allows identification of novel targets in the treatment of cancer. The current study uses Affymetrix human genome chips HG-U133 to collect the gene expression data. These chips contain various probe sequences corresponding 3’ parts of the gene. Perl programs were used to compare the individual probe cell expression across different cell lines and then candidate probe sets were short listed. Further the candidate probe set list was refined based on the expression levels neighboring probes cells. The computational predictions have resulted in a set of candidates, but on verification none of them showed any splice variant information. This could be partially due to complex chip hybridization property that is the different robes in a probe set show different expression values. Due to this the program will have low specificity and lists many false positives. The fusion protein TLS-CHOP is believed to play an affective role in splicing of genes. If this is true then we should have seen at least a couple of splice variants. Even other genes which were believed to interact with TLS-CHOP were examined. But even those experiments didn’t give any positive results. Thus the results raise a question if TLS-CHOP has any impact on splicing and if so to what extent. This can be further investigated with the availability of more advanced chips. According to the present studies using genechips, we can say that the fusion protein TLS-CHOP has very least effect on splicing. |